pedtools (version 1.1.0)

ped_complex: Complex pedigree structures

Description

Functions for creating a selection of pedigrees that are awkward to construct from scratch, or by using the simple structures described in ped_basic.

Usage

doubleCousins(
  degree1,
  degree2,
  removal1 = 0,
  removal2 = 0,
  half1 = FALSE,
  half2 = FALSE,
  child = FALSE
)
doubleFirstCousins()
quadHalfFirstCousins()
fullSibMating(n)
halfSibStack(n)

Arguments

degree1, degree2, removal1, removal2

Nonnegative integers.

half1, half2

Logicals, indicating if the fathers (resp. mothers) should be full or half cousins.

child

A logical: Should a child be added to the double cousins?

n

A positive integer indicating the number of crossings.

Value

A ped object.

Details

The function doubleCousins returns a pedigree linking two individuals who are simultaneous paternal and maternal cousins. More precisely, they are:

• paternal (full or half) cousins of type (degree1, removal1)

• maternal (full or half) cousins of type (degree2, removal2).

For convenience, a wrapper doubleFirstCousins is provided for the most common case, double first cousins.

quadHalfFirstCousins produces a pedigree with quadruple half first cousins.

fullSibMating crosses full sibs consecutively n times.

halfSibStack produces a breeding scheme where the two individuals in the final generation are simultaneous half k'th cousins, for each k = 0,...,n-1.

See Also

ped_basic

Examples

# NOT RUN {
# Consecutive brother-sister matings.
x = fullSibMating(2)
# plot(x)

# Simultaneous half siblings and half first cousins
x = halfSibStack(2)
# plot(x)

# Double first cousins
x = doubleFirstCousins()
# plot(x)

# Quadruple half first cousins
x = quadHalfFirstCousins()
# plot(x) # Weird plotting behaviour for this pedigree.

# }